A Novel Corpus of Annotated Medical Imaging Reports and Information Extraction Results Using BERT-based Language Models

Medical imaging is critical to the diagnosis, surveillance, and treatment of many health conditions, including oncological, neurological, cardiovascular, and musculoskeletal disorders, among others. Radiologists interpret these complex, unstructured images and articulate their assessments through narrative reports that remain largely unstructured. This unstructured narrative must be converted into a structured semantic representation to facilitate secondary applications such as retrospective analyses or clinical decision support. Here, we introduce the Corpus of Annotated Medical Imaging Reports (CAMIR), which includes 609 annotated radiology reports from three imaging modality types: Computed Tomography, Magnetic Resonance Imaging, and Positron Emission Tomography-Computed Tomography. Reports were annotated using an event-based schema that captures clinical indications, lesions, and medical problems. Each event consists of a trigger and multiple arguments, and a majority of the argument types, including anatomy, normalize the spans to pre-defined concepts to facilitate secondary use. CAMIR uniquely combines a granular event structure and concept normalization. To extract CAMIR events, we explored two BERT (Bi-directional Encoder Representation from Transformers)-based architectures, including an existing architecture (mSpERT) that jointly extracts all event information and a multi-step approach (PL-Marker++) that we augmented for the CAMIR schema.

HiGraphDTI: Hierarchical Graph Representation Learning for Drug-Target Interaction Prediction

The discovery of drug-target interactions (DTIs) plays a crucial role in pharmaceutical development. The deep learning model achieves more accurate results in DTI prediction due to its ability to extract robust and expressive features from drug and target chemical structures. However, existing deep learning methods typically generate drug features via aggregating molecular atom representations, ignoring the chemical properties carried by motifs, i.e., substructures of the molecular graph. The atom-drug double-level molecular representation learning can not fully exploit structure information and fails to interpret the DTI mechanism from the motif perspective. In addition, sequential model-based target feature extraction either fuses limited contextual information or requires expensive computational resources. To tackle the above issues, we propose a hierarchical graph representation learning-based DTI prediction method (HiGraphDTI). Specifically, HiGraphDTI learns hierarchical drug representations from triple-level molecular graphs to thoroughly exploit chemical information embedded in atoms, motifs, and molecules. Then, an attentional feature fusion module incorporates information from different receptive fields to extract expressive target features.Last, the hierarchical attention mechanism identifies crucial molecular segments, which offers complementary views for interpreting interaction mechanisms. The experiment results not only demonstrate the superiority of HiGraphDTI to the state-of-the-art methods, but also confirm the practical ability of our model in interaction interpretation and new DTI discovery.

A Regularization-based Transfer Learning Method for Information Extraction via Instructed Graph Decoder

Information extraction (IE) aims to extract complex structured information from the text. Numerous datasets have been constructed for various IE tasks, leading to time-consuming and labor-intensive data annotations. Nevertheless, most prevailing methods focus on training task-specific models, while the common knowledge among different IE tasks is not explicitly modeled. Moreover, the same phrase may have inconsistent labels in different tasks, which poses a big challenge for knowledge transfer using a unified model. In this study, we propose a regularization-based transfer learning method for IE (TIE) via an instructed graph decoder. Specifically, we first construct an instruction pool for datasets from all well-known IE tasks, and then present an instructed graph decoder, which decodes various complex structures into a graph uniformly based on corresponding instructions. In this way, the common knowledge shared with existing datasets can be learned and transferred to a new dataset with new labels. Furthermore, to alleviate the label inconsistency problem among various IE tasks, we introduce a task-specific regularization strategy, which does not update the gradients of two tasks with 'opposite direction'. We conduct extensive experiments on 12 datasets spanning four IE tasks, and the results demonstrate the great advantages of our proposed method

Emotion-cause pair extraction method based on multi-granularity information and multi-module interaction

The purpose of emotion-cause pair extraction is to extract the pair of emotion clauses and cause clauses. On the one hand, the existing methods do not take fully into account the relationship between the emotion extraction of two auxiliary tasks. On the other hand, the existing two-stage model has the problem of error propagation. In addition, existing models do not adequately address the emotion and cause-induced locational imbalance of samples. To solve these problems, an end-to-end multitasking model (MM-ECPE) based on shared interaction between GRU, knowledge graph and transformer modules is proposed. Furthermore, based on MM-ECPE, in order to use the encoder layer to better solve the problem of imbalanced distribution of clause distances between clauses and emotion clauses, we propose a novel encoding based on BERT, sentiment lexicon, and position-aware interaction module layer of emotion motif pair retrieval model (MM-ECPE(BERT)). The model first fully models the interaction between different tasks through the multi-level sharing module, and mines the shared information between emotion-cause pair extraction and the emotion extraction and cause extraction. Second, to solve the imbalanced distribution of emotion clauses and cause clauses problem, suitable labels are screened out according to the knowledge graph path length and task-specific features are constructed so that the model can focus on extracting pairs with corresponding emotion-cause relationships. Experimental results on the ECPE benchmark dataset show that the proposed model achieves good performance, especially on position-imbalanced samples.

LR-FPN: Enhancing Remote Sensing Object Detection with Location Refined Feature Pyramid Network

Remote sensing target detection aims to identify and locate critical targets within remote sensing images, finding extensive applications in agriculture and urban planning. Feature pyramid networks (FPNs) are commonly used to extract multi-scale features. However, existing FPNs often overlook extracting low-level positional information and fine-grained context interaction. To address this, we propose a novel location refined feature pyramid network (LR-FPN) to enhance the extraction of shallow positional information and facilitate fine-grained context interaction. The LR-FPN consists of two primary modules: the shallow position information extraction module (SPIEM) and the contextual interaction module (CIM). Specifically, SPIEM first maximizes the retention of solid location information of the target by simultaneously extracting positional and saliency information from the low-level feature map. Subsequently, CIM injects this robust location information into different layers of the original FPN through spatial and channel interaction, explicitly enhancing the object area. Moreover, in spatial interaction, we introduce a simple local and non-local interaction strategy to learn and retain the saliency information of the object. Lastly, the LR-FPN can be readily integrated into common object detection frameworks to improve performance significantly. Extensive experiments on two large-scale remote sensing datasets (i.e., DOTAV1.0 and HRSC2016) demonstrate that the proposed LR-FPN is superior to state-of-the-art object detection approaches. Our code and models will be publicly available.

Event Grounded Criminal Court View Generation with Cooperative (Large) Language Models

With the development of legal intelligence, Criminal Court View Generation has attracted much attention as a crucial task of legal intelligence, which aims to generate concise and coherent texts that summarize case facts and provide explanations for verdicts. Existing researches explore the key information in case facts to yield the court views. Most of them employ a coarse-grained approach that partitions the facts into broad segments (e.g., verdict-related sentences) to make predictions. However, this approach fails to capture the complex details present in the case facts, such as various criminal elements and legal events. To this end, in this paper, we propose an Event Grounded Generation (EGG) method for criminal court view generation with cooperative (Large) Language Models, which introduces the fine-grained event information into the generation. Specifically, we first design a LLMs-based extraction method that can extract events in case facts without massive annotated events. Then, we incorporate the extracted events into court view generation by merging case facts and events. Besides, considering the computational burden posed by the use of LLMs in the extraction phase of EGG, we propose a LLMs-free EGG method that can eliminate the requirement for event extraction using LLMs in the inference phase. Extensive experimental results on a real-world dataset clearly validate the effectiveness of our proposed method.

Class-Incremental Few-Shot Event Detection

Event detection is one of the fundamental tasks in information extraction and knowledge graph. However, a realistic event detection system often needs to deal with new event classes constantly. These new classes usually have only a few labeled instances as it is time-consuming and labor-intensive to annotate a large number of unlabeled instances. Therefore, this paper proposes a new task, called class-incremental few-shot event detection. Nevertheless, this task faces two problems, i.e., old knowledge forgetting and new class overfitting. To solve these problems, this paper further presents a novel knowledge distillation and prompt learning based method, called Prompt-KD. Specifically, to handle the forgetting problem about old knowledge, Prompt-KD develops an attention based multi-teacher knowledge distillation framework, where the ancestor teacher model pre-trained on base classes is reused in all learning sessions, and the father teacher model derives the current student model via adaptation. On the other hand, in order to cope with the few-shot learning scenario and alleviate the corresponding new class overfitting problem, Prompt-KD is also equipped with a prompt learning mechanism. Extensive experiments on two benchmark datasets, i.e., FewEvent and MAVEN, demonstrate the superior performance of Prompt-KD.

TextCoT: Zoom In for Enhanced Multimodal Text-Rich Image Understanding

The advent of Large Multimodal Models (LMMs) has sparked a surge in research aimed at harnessing their remarkable reasoning abilities. However, for understanding text-rich images, challenges persist in fully leveraging the potential of LMMs, and existing methods struggle with effectively processing high-resolution images. In this work, we propose TextCoT, a novel Chain-of-Thought framework for text-rich image understanding. TextCoT utilizes the captioning ability of LMMs to grasp the global context of the image and the grounding capability to examine local textual regions. This allows for the extraction of both global and local visual information, facilitating more accurate question-answering. Technically, TextCoT consists of three stages, including image overview, coarse localization, and fine-grained observation. The image overview stage provides a comprehensive understanding of the global scene information, and the coarse localization stage approximates the image area containing the answer based on the question asked. Then, integrating the obtained global image descriptions, the final stage further examines specific regions to provide accurate answers. Our method is free of extra training, offering immediate plug-and-play functionality. Extensive experiments are conducted on a series of text-rich image question-answering benchmark datasets based on several advanced LMMs, and the results demonstrate the effectiveness and strong generalization ability of our method. Code is available at https://github.com/bzluan/TextCoT.

Combining Language and Graph Models for Semi-structured Information Extraction on the Web

Relation extraction is an efficient way of mining the extraordinary wealth of human knowledge on the Web. Existing methods rely on domain-specific training data or produce noisy outputs. We focus here on extracting targeted relations from semi-structured web pages given only a short description of the relation. We present GraphScholarBERT, an open-domain information extraction method based on a joint graph and language model structure. GraphScholarBERT can generalize to previously unseen domains without additional data or training and produces only clean extraction results matched to the search keyword. Experiments show that GraphScholarBERT can improve extraction F1 scores by as much as 34.8\% compared to previous work in a zero-shot domain and zero-shot website setting.

A Mutual Inclusion Mechanism for Precise Boundary Segmentation in Medical Images

In medical imaging, accurate image segmentation is crucial for quantifying diseases, assessing prognosis, and evaluating treatment outcomes. However, existing methods lack an in-depth integration of global and local features, failing to pay special attention to abnormal regions and boundary details in medical images. To this end, we present a novel deep learning-based approach, MIPC-Net, for precise boundary segmentation in medical images. Our approach, inspired by radiologists' working patterns, features two distinct modules: (i) \textbf{Mutual Inclusion of Position and Channel Attention (MIPC) module}: To enhance the precision of boundary segmentation in medical images, we introduce the MIPC module, which enhances the focus on channel information when extracting position features and vice versa; (ii) \textbf{GL-MIPC-Residue}: To improve the restoration of medical images, we propose the GL-MIPC-Residue, a global residual connection that enhances the integration of the encoder and decoder by filtering out invalid information and restoring the most effective information lost during the feature extraction process. We evaluate the performance of the proposed model using metrics such as Dice coefficient (DSC) and Hausdorff Distance (HD) on three publicly accessible datasets: Synapse, ISIC2018-Task, and Segpc. Our ablation study shows that each module contributes to improving the quality of segmentation results. Furthermore, with the assistance of both modules, our approach outperforms state-of-the-art methods across all metrics on the benchmark datasets, notably achieving a 2.23mm reduction in HD on the Synapse dataset, strongly evidencing our model's enhanced capability for precise image boundary segmentation. Codes will be available at https://github.com/SUN-1024/MIPC-Net.